Calculate expanded discard composition

Calculate expanded discard composition

get_biological_data(
  dir = NULL,
  data,
  catch_data,
  species_name,
  len_bins,
  age_bins,
  gear_groups,
  gear_names,
  fleet_colname,
  fleet_groups,
  fleet_names,
  expand = TRUE
)

Arguments

dir

Directory location to save files.

data

A data frame of WCGOP biological data that includes all species.

catch_data

A data frame of WCGOP catch data that includes all species. This data frame will be used to check confidentiality.

species_name

Species that you want composition data for.

len_bins

Length composition bins (example: seq(20, 90, 2)).

age_bins

Age composition bins (example: 1:50).

gear_groups

List of gear types to group together (example: list(c("Bottom Trawl", "Midwater Trawl"), c("Hook & Line", "Pot", "Shrimp Trawl"))).

gear_names

Vector of gear group names (example: c("trawl", "fixed gear")).

fleet_colname

Column to use to determine areas for fleets (example: "r_state.x")

fleet_groups

List of fleet groups to use (example: list(c("WA", "OR", "CA"))).

fleet_names

Vector of fleet names (example: c("coastwide")).

expand

Logical statement on whether to expand the compositions samples. Default is TRUE. If set to FALSE, then raw samples will be returned that are filtered for confidentiality.

Author

Chantel Wetzel